---
name: "fathom"
section: "1"
platform: "linux"
package: "snap"
version: "2013-11-29-11"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/fathom"
---

# fathom(1)

sequence and annotation tool

## NAME

fathom - sequence and annotation tool

## SYNOPSIS

**fathom** \<**ann**\> \<**dna**\> \<**commands**\>

## OPTIONS

- **-help**

  report useful information

**-validate** \[-quiet\]

**-gene-stats** \[-errors-ok **-nucleotide** **-dinucleotide\]**

**-categorize** \<int\>

**-export** \<int\> \[-plus **-errors-ok\]**

**-extract** \<feature\> **-length** \<int\> **-offset** \<int\>

**-exon-intron**

**-split** \<-number \<int\> \| **-training** \<float\> \| **-GC** \<float\> \| **-repeat** \<float\>\>

**-ace-format** \<-gene-method \<string\> \[-dna **-extra** \<string\>\]\>

**-compare-genes** \<predictions\> \[-details\]

**-score-genes** \<hmm\> \[-errors-ok\]

**-filter-genes** \<hmm\> **-min-score** \<float\> **-min-length** \<int\>